SMTL ID : 3j0o.1

Core of mammalian 80S pre-ribosome in complex with tRNAs fitted to a 9A cryo-EM map: classic PRE state 2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-1-1-mer

Ligands

3 x C- G- A- G- G- A- A: 40S ribosomal RNA fragment(Non-covalent)(Non-functional Binders)

C-G-A-G-G-A-A.1: 11 residues within 4Å: Chain E: G.1 Chain F: A.12, C.13 Chain H: F.150, K.151 Chain V: G.30, A.31, U.32, C.40, C.41 Chain W: A.35 No protein-ligand interaction detected (PLIP) C-G-A-G-G-A-A.2: 6 residues within 4Å: Chain H: R.132 Ligands: U-C-C-C-U.3, U-C-C-C-U.3, U-C-C-C-U.3, U-C-C-C-U.3, U-C-C-C-U.3 Protein-ligand interaction information (PLIP) not available C-G-A-G-G-A-A.3: 3 residues within 4Å: Ligands: A-C-C-A.2, A-C-C-A.2, A-A.7 No protein-ligand interaction detected (PLIP)

1 x C- C- U- A- A- G: 60S ribosomal RNA fragment(Non-covalent)

C-C-U-A-A-G.4: 10 residues within 4Å: Chain P: C.5, A.6, A.7 Chain T: V.1, N.2, V.3, P.4, K.88, H.89, E.95 Protein-ligand interaction information (PLIP) not available

3 x U- U- C: mRNA fragment(Non-functional Binders)(Non-covalent)

U-U-C.5: 9 residues within 4Å: Chain A: G.31 Chain G: A.103, A.104, G.105 Chain U: G.34, A.35, A.36, A.37 Ligands: U-U-C.6 Protein-ligand interaction information (PLIP) not available U-U-C.6: 11 residues within 4Å: Chain G: C.4, G.5, C.6, C.7, U.109 Chain V: G.34, A.35, A.36, A.37 Ligands: U-U-C.5, A-A.7 No protein-ligand interaction detected (PLIP) U-U-C.7: 4 residues within 4Å: Chain H: A.118 Chain W: G.34 Ligands: U-C-C-C-U.3, U-U-C.6 Protein-ligand interaction information (PLIP) not available

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Budkevich, T. et al., Structure and dynamics of the Mammalian ribosomal pretranslocation complex. Mol.Cell (2011)

Release Date

2011-11-16

Peptides

Ribosomal protein S5: H
Ribosomal protein S14: I
Ribosomal protein S23: J
Ribosomal protein S30: K
Ribosomal protein S15: L
Ribosomal protein L10a: S
Ribosomal protein L36a: T

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

H
T

I
K

J
L

K
X

L
S

S
B

T
F

Ribosomal protein S5

Ribosomal protein S14

Ribosomal protein S23

Ribosomal protein S30

Ribosomal protein S15

Ribosomal protein L10a

Ribosomal protein L36a

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